AutoCloner

Multiple sequence alignment - TraesCS1D01G091800

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Download Multiple Sequence Alignment: (Fasta) (Clustal)

BLAST Results

Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

	qseqid	sseqid	percentage.identical	alignment.length	no.mismatch	no.gap.openings	qstart	qend	sstart	send	evalue	bitscore
0	TraesCS1D01G091800	chr1D	100.000	3145	0	0	1	3145	78109259	78106115	0.000000e+00	5808
1	TraesCS1D01G091800	chr5B	92.917	2513	159	12	639	3137	643322857	643320350	0.000000e+00	3637
2	TraesCS1D01G091800	chr5B	91.693	2528	160	28	639	3143	650173926	650171426	0.000000e+00	3459
3	TraesCS1D01G091800	chr5B	93.545	1704	104	4	1442	3143	607183674	607185373	0.000000e+00	2532
4	TraesCS1D01G091800	chr2D	93.934	2374	122	10	767	3125	446896734	446899100	0.000000e+00	3567
5	TraesCS1D01G091800	chr3A	92.520	2500	162	11	639	3125	15355097	15357584	0.000000e+00	3557
6	TraesCS1D01G091800	chr6A	92.632	2470	144	20	639	3081	570067108	570064650	0.000000e+00	3518
7	TraesCS1D01G091800	chr6A	90.897	2351	161	29	811	3143	21289920	21287605	0.000000e+00	3107
8	TraesCS1D01G091800	chr6D	94.275	2236	110	9	921	3143	155821646	155819416	0.000000e+00	3404
9	TraesCS1D01G091800	chr7A	90.134	2544	164	42	639	3143	10616607	10614112	0.000000e+00	3227
10	TraesCS1D01G091800	chr7D	94.545	2090	89	11	640	2717	35846000	35843924	0.000000e+00	3205
11	TraesCS1D01G091800	chrUn	90.028	1414	84	18	639	1996	100590701	100592113	0.000000e+00	1777
12	TraesCS1D01G091800	chr7B	90.339	973	62	5	638	1598	610456566	610455614	0.000000e+00	1247
13	TraesCS1D01G091800	chr1B	88.673	618	41	12	18	632	121573435	121572844	0.000000e+00	726
14	TraesCS1D01G091800	chr1B	86.690	571	42	11	62	632	121719762	121719226	1.250000e-168	603
15	TraesCS1D01G091800	chr1A	88.182	330	21	2	259	588	105282492	105282803	8.230000e-101	377
16	TraesCS1D01G091800	chr1A	91.837	245	17	3	18	261	105280111	105280353	3.890000e-89	339

These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

	query	scaffold	start	end	length	rev.comp	avg.bitscore	max.bitscore	avg.percent.identical	query.start	query.end	num_hsp	groupid	homo_length
0	TraesCS1D01G091800	chr1D	78106115	78109259	3144	True	5808	5808	100.0000	1	3145	1	chr1D.!!$R1	3144
1	TraesCS1D01G091800	chr5B	643320350	643322857	2507	True	3637	3637	92.9170	639	3137	1	chr5B.!!$R1	2498
2	TraesCS1D01G091800	chr5B	650171426	650173926	2500	True	3459	3459	91.6930	639	3143	1	chr5B.!!$R2	2504
3	TraesCS1D01G091800	chr5B	607183674	607185373	1699	False	2532	2532	93.5450	1442	3143	1	chr5B.!!$F1	1701
4	TraesCS1D01G091800	chr2D	446896734	446899100	2366	False	3567	3567	93.9340	767	3125	1	chr2D.!!$F1	2358
5	TraesCS1D01G091800	chr3A	15355097	15357584	2487	False	3557	3557	92.5200	639	3125	1	chr3A.!!$F1	2486
6	TraesCS1D01G091800	chr6A	570064650	570067108	2458	True	3518	3518	92.6320	639	3081	1	chr6A.!!$R2	2442
7	TraesCS1D01G091800	chr6A	21287605	21289920	2315	True	3107	3107	90.8970	811	3143	1	chr6A.!!$R1	2332
8	TraesCS1D01G091800	chr6D	155819416	155821646	2230	True	3404	3404	94.2750	921	3143	1	chr6D.!!$R1	2222
9	TraesCS1D01G091800	chr7A	10614112	10616607	2495	True	3227	3227	90.1340	639	3143	1	chr7A.!!$R1	2504
10	TraesCS1D01G091800	chr7D	35843924	35846000	2076	True	3205	3205	94.5450	640	2717	1	chr7D.!!$R1	2077
11	TraesCS1D01G091800	chrUn	100590701	100592113	1412	False	1777	1777	90.0280	639	1996	1	chrUn.!!$F1	1357
12	TraesCS1D01G091800	chr7B	610455614	610456566	952	True	1247	1247	90.3390	638	1598	1	chr7B.!!$R1	960
13	TraesCS1D01G091800	chr1B	121572844	121573435	591	True	726	726	88.6730	18	632	1	chr1B.!!$R1	614
14	TraesCS1D01G091800	chr1B	121719226	121719762	536	True	603	603	86.6900	62	632	1	chr1B.!!$R2	570
15	TraesCS1D01G091800	chr1A	105280111	105282803	2692	False	358	377	90.0095	18	588	2	chr1A.!!$F1	570

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
938	3125	0.329931	TCTGTTCTCCTCTCCTCGCT	59.67	55.0	0.0	0.0	0.0	4.93	F
943	3130	0.329931	TCTCCTCTCCTCGCTCTGTT	59.67	55.0	0.0	0.0	0.0	3.16	F

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability	Orientation
1940	4199	1.607178	CTGGTGCTGGGCATCCAAA	60.607	57.895	12.22	0.0	43.51	3.28	R
2594	4859	2.592102	ACAACACTGCTGGATCCAAT	57.408	45.000	17.00	0.0	0.00	3.16	R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
161	163	7.927629	AGATGATAATCAGTTTCTTCTGAGCTC	59.072	37.037	6.82	6.82	45.70	4.09
243	245	1.307691	AGGGAGAGCTTCATGGGCT	60.308	57.895	12.56	12.56	43.26	5.19
257	259	4.746309	GGCTGCCCCATGTGAGCA	62.746	66.667	7.66	0.00	32.83	4.26
273	2416	5.824429	TGTGAGCATTATAGCAGCAATTTC	58.176	37.500	0.00	0.00	36.85	2.17
304	2447	2.856222	CATGGGAAATGAGCTCCTACC	58.144	52.381	12.15	6.57	33.11	3.18
309	2452	1.694696	GAAATGAGCTCCTACCGGGAT	59.305	52.381	12.15	0.00	44.15	3.85
318	2461	1.276989	TCCTACCGGGATTCACACAAC	59.723	52.381	6.32	0.00	39.58	3.32
361	2504	1.135717	CCAACATGTATGCACACCACG	60.136	52.381	0.00	0.00	37.54	4.94
374	2517	0.371301	CACCACGATCACGCATTGAG	59.629	55.000	0.00	0.00	43.96	3.02
392	2535	4.085357	TGAGCAGGTCAATTGTACACTT	57.915	40.909	5.13	0.00	29.64	3.16
417	2560	7.676004	TGGAACAACTACAATCTCTATCAACA	58.324	34.615	0.00	0.00	31.92	3.33
418	2561	8.154203	TGGAACAACTACAATCTCTATCAACAA	58.846	33.333	0.00	0.00	31.92	2.83
419	2562	8.443937	GGAACAACTACAATCTCTATCAACAAC	58.556	37.037	0.00	0.00	0.00	3.32
503	2646	5.695851	AATTAGAACTCAAGCCAACACAG	57.304	39.130	0.00	0.00	0.00	3.66
610	2753	1.407299	CCCAGATGTGAAGAATCGGCA	60.407	52.381	0.00	0.00	0.00	5.69
632	2775	3.055094	ACGATGAACCTCATGTTAGCCTT	60.055	43.478	0.00	0.00	37.20	4.35
633	2776	4.161565	ACGATGAACCTCATGTTAGCCTTA	59.838	41.667	0.00	0.00	37.20	2.69
634	2777	4.747108	CGATGAACCTCATGTTAGCCTTAG	59.253	45.833	0.00	0.00	37.20	2.18
635	2778	3.873910	TGAACCTCATGTTAGCCTTAGC	58.126	45.455	0.00	0.00	37.29	3.09
636	2779	3.206964	GAACCTCATGTTAGCCTTAGCC	58.793	50.000	0.00	0.00	37.15	3.93
671	2814	1.047801	AAACCACCACATTTCAGCCC	58.952	50.000	0.00	0.00	0.00	5.19
761	2906	5.348164	CAAAAAGTACCAAACCTCCTGTTG	58.652	41.667	0.00	0.00	37.23	3.33
918	3086	1.826054	CGCCCTCTCCTCTCGTCAT	60.826	63.158	0.00	0.00	0.00	3.06
931	3118	3.691575	TCTCGTCATTCTGTTCTCCTCT	58.308	45.455	0.00	0.00	0.00	3.69
932	3119	3.692101	TCTCGTCATTCTGTTCTCCTCTC	59.308	47.826	0.00	0.00	0.00	3.20
933	3120	2.755655	TCGTCATTCTGTTCTCCTCTCC	59.244	50.000	0.00	0.00	0.00	3.71
934	3121	2.757868	CGTCATTCTGTTCTCCTCTCCT	59.242	50.000	0.00	0.00	0.00	3.69
935	3122	3.181491	CGTCATTCTGTTCTCCTCTCCTC	60.181	52.174	0.00	0.00	0.00	3.71
936	3123	3.020274	TCATTCTGTTCTCCTCTCCTCG	58.980	50.000	0.00	0.00	0.00	4.63
937	3124	1.178276	TTCTGTTCTCCTCTCCTCGC	58.822	55.000	0.00	0.00	0.00	5.03
938	3125	0.329931	TCTGTTCTCCTCTCCTCGCT	59.670	55.000	0.00	0.00	0.00	4.93
939	3126	0.738389	CTGTTCTCCTCTCCTCGCTC	59.262	60.000	0.00	0.00	0.00	5.03
940	3127	0.329931	TGTTCTCCTCTCCTCGCTCT	59.670	55.000	0.00	0.00	0.00	4.09
941	3128	0.738389	GTTCTCCTCTCCTCGCTCTG	59.262	60.000	0.00	0.00	0.00	3.35
942	3129	0.329931	TTCTCCTCTCCTCGCTCTGT	59.670	55.000	0.00	0.00	0.00	3.41
943	3130	0.329931	TCTCCTCTCCTCGCTCTGTT	59.670	55.000	0.00	0.00	0.00	3.16
944	3131	0.738389	CTCCTCTCCTCGCTCTGTTC	59.262	60.000	0.00	0.00	0.00	3.18
945	3132	0.329931	TCCTCTCCTCGCTCTGTTCT	59.670	55.000	0.00	0.00	0.00	3.01
946	3133	1.181786	CCTCTCCTCGCTCTGTTCTT	58.818	55.000	0.00	0.00	0.00	2.52
947	3134	1.134175	CCTCTCCTCGCTCTGTTCTTC	59.866	57.143	0.00	0.00	0.00	2.87
948	3135	2.091541	CTCTCCTCGCTCTGTTCTTCT	58.908	52.381	0.00	0.00	0.00	2.85
949	3136	2.088423	TCTCCTCGCTCTGTTCTTCTC	58.912	52.381	0.00	0.00	0.00	2.87
984	3171	4.351938	CACCGACCGCCGTTCTGA	62.352	66.667	0.00	0.00	36.31	3.27
991	3178	3.257561	CGCCGTTCTGATGCTCCG	61.258	66.667	0.00	0.00	0.00	4.63
994	3181	2.125552	CGTTCTGATGCTCCGCCA	60.126	61.111	0.00	0.00	0.00	5.69
1056	3243	3.705579	CAGTCATGAACATCTCCTCCTCT	59.294	47.826	0.00	0.00	0.00	3.69
1113	3308	1.672529	GGTTAGGGTTAGGGTTGGGA	58.327	55.000	0.00	0.00	0.00	4.37
1209	3408	3.355378	TCCGAATTTCAATGGCACTGAT	58.645	40.909	0.00	0.00	0.00	2.90
1319	3522	4.284490	TGGATGTGCTAAGGTATGATCCTC	59.716	45.833	0.00	0.00	36.74	3.71
1391	3594	5.109210	AGCTTTGTTTAGTTTGGTCTTTGC	58.891	37.500	0.00	0.00	0.00	3.68
1464	3667	5.468746	TGTGGTTAGTGATTACTGCTTTGTC	59.531	40.000	0.00	0.00	37.78	3.18
1514	3717	8.182227	AGTGCTTAGTCTTTGTTTAACTTGTTC	58.818	33.333	0.00	0.00	0.00	3.18
1576	3799	7.532884	GGTCAGTGCTTAATTACTTGTTTAACG	59.467	37.037	0.00	0.00	0.00	3.18
1646	3870	2.665165	AGAACCCTGAACATGTTTGCA	58.335	42.857	13.36	6.17	0.00	4.08
1698	3940	8.637099	TCTTCATCCTACTCACTTAGATGATTG	58.363	37.037	2.16	0.36	0.00	2.67
1915	4174	9.436957	GAAGAAACTACAGGAGAATTATGACAA	57.563	33.333	0.00	0.00	0.00	3.18
1940	4199	4.520179	TGTATGCTGATGTCAATGCTCTT	58.480	39.130	0.00	0.00	0.00	2.85
1955	4214	0.529378	CTCTTTTGGATGCCCAGCAC	59.471	55.000	0.00	0.00	44.60	4.40
2057	4316	0.520847	GCAACTTGAAGGCAGAGCTC	59.479	55.000	5.27	5.27	0.00	4.09
2165	4426	3.636764	AGCAAAAGGGTGTGGAGTTAAAG	59.363	43.478	0.00	0.00	0.00	1.85
2722	4987	3.282885	GGATCCAACCTTGATGAACCTC	58.717	50.000	6.95	0.00	0.00	3.85
2755	5020	8.190122	TGTGAGTCAAATTTGATGTTATATGGC	58.810	33.333	23.05	7.02	39.73	4.40
2781	5046	9.691362	CTTATGTGCTTAGTACAATTTGGTTTT	57.309	29.630	7.30	0.00	31.17	2.43
2951	5216	6.710597	ATCTTGACCCTCATTTCATTGATG	57.289	37.500	0.00	0.00	0.00	3.07
2952	5217	5.818887	TCTTGACCCTCATTTCATTGATGA	58.181	37.500	0.00	0.00	34.44	2.92
2999	5264	3.562973	CCTTGACCCTCATTTCATCGATG	59.437	47.826	19.61	19.61	0.00	3.84
3000	5265	4.445453	CTTGACCCTCATTTCATCGATGA	58.555	43.478	23.99	23.99	34.44	2.92
3019	5333	3.013921	TGAATCGACAAAATGGCCCTAC	58.986	45.455	0.00	0.00	0.00	3.18
3025	5339	1.567175	ACAAAATGGCCCTACGGGTAT	59.433	47.619	0.00	0.00	46.51	2.73
3099	5461	5.439721	TGACCCTCATTTCATCGATTCATT	58.560	37.500	0.00	0.00	0.00	2.57
3143	5505	3.562973	CCTTGACCCTCATTTCATCGATG	59.437	47.826	19.61	19.61	0.00	3.84
3144	5506	4.445453	CTTGACCCTCATTTCATCGATGA	58.555	43.478	23.99	23.99	34.44	2.92

Position	MSA Position	Penalty	Sequence	TM	GC	Self any TH	Self end TH	Hairpin	End Stability
0	1	9.393249	CTTCAAACAACATTGTACACGAATATT	57.607	29.630	0.00	0.00	41.31	1.28
1	2	8.564574	ACTTCAAACAACATTGTACACGAATAT	58.435	29.630	0.00	0.00	41.31	1.28
2	3	7.921787	ACTTCAAACAACATTGTACACGAATA	58.078	30.769	0.00	0.00	41.31	1.75
3	4	6.791303	ACTTCAAACAACATTGTACACGAAT	58.209	32.000	0.00	0.00	41.31	3.34
5	6	5.220700	GGACTTCAAACAACATTGTACACGA	60.221	40.000	0.00	0.00	41.31	4.35
6	7	4.967575	GGACTTCAAACAACATTGTACACG	59.032	41.667	0.00	0.00	41.31	4.49
7	8	5.741982	GTGGACTTCAAACAACATTGTACAC	59.258	40.000	0.00	0.00	41.31	2.90
8	9	5.447954	CGTGGACTTCAAACAACATTGTACA	60.448	40.000	0.00	0.00	41.31	2.90
9	10	4.967575	CGTGGACTTCAAACAACATTGTAC	59.032	41.667	0.00	0.00	41.31	2.90
10	11	4.876679	TCGTGGACTTCAAACAACATTGTA	59.123	37.500	0.00	0.00	41.31	2.41
11	12	3.692101	TCGTGGACTTCAAACAACATTGT	59.308	39.130	0.00	0.00	44.72	2.71
12	13	4.285807	TCGTGGACTTCAAACAACATTG	57.714	40.909	0.00	0.00	0.00	2.82
13	14	4.974368	TTCGTGGACTTCAAACAACATT	57.026	36.364	0.00	0.00	0.00	2.71
14	15	6.817765	ATATTCGTGGACTTCAAACAACAT	57.182	33.333	0.00	0.00	0.00	2.71
15	16	6.627395	AATATTCGTGGACTTCAAACAACA	57.373	33.333	0.00	0.00	0.00	3.33
16	17	7.924103	AAAATATTCGTGGACTTCAAACAAC	57.076	32.000	0.00	0.00	0.00	3.32
214	216	0.612744	GCTCTCCCTCACTCAGCTTT	59.387	55.000	0.00	0.00	0.00	3.51
243	245	2.815215	GCTATAATGCTCACATGGGGCA	60.815	50.000	12.60	12.60	36.36	5.36
273	2416	7.439381	AGCTCATTTCCCATGCTAAAATTATG	58.561	34.615	0.00	0.00	31.71	1.90
304	2447	2.073816	GTGGTAGTTGTGTGAATCCCG	58.926	52.381	0.00	0.00	0.00	5.14
309	2452	0.533308	GCCGGTGGTAGTTGTGTGAA	60.533	55.000	1.90	0.00	0.00	3.18
318	2461	1.274167	TGAGTGTTTAGCCGGTGGTAG	59.726	52.381	1.90	0.00	0.00	3.18
361	2504	0.654683	GACCTGCTCAATGCGTGATC	59.345	55.000	0.00	0.00	46.63	2.92
374	2517	3.146066	TCCAAGTGTACAATTGACCTGC	58.854	45.455	31.62	2.03	38.53	4.85
392	2535	7.676004	TGTTGATAGAGATTGTAGTTGTTCCA	58.324	34.615	0.00	0.00	0.00	3.53
403	2546	9.814899	AGAGATTGTAGTTGTTGATAGAGATTG	57.185	33.333	0.00	0.00	0.00	2.67
412	2555	9.472361	GTTGTACTTAGAGATTGTAGTTGTTGA	57.528	33.333	0.00	0.00	0.00	3.18
413	2556	9.477484	AGTTGTACTTAGAGATTGTAGTTGTTG	57.523	33.333	0.00	0.00	0.00	3.33
414	2557	9.694137	GAGTTGTACTTAGAGATTGTAGTTGTT	57.306	33.333	0.00	0.00	0.00	2.83
415	2558	8.857098	TGAGTTGTACTTAGAGATTGTAGTTGT	58.143	33.333	0.00	0.00	0.00	3.32
416	2559	9.692749	TTGAGTTGTACTTAGAGATTGTAGTTG	57.307	33.333	0.00	0.00	0.00	3.16
417	2560	9.694137	GTTGAGTTGTACTTAGAGATTGTAGTT	57.306	33.333	0.00	0.00	0.00	2.24
418	2561	8.857098	TGTTGAGTTGTACTTAGAGATTGTAGT	58.143	33.333	0.00	0.00	0.00	2.73
419	2562	9.130312	GTGTTGAGTTGTACTTAGAGATTGTAG	57.870	37.037	0.00	0.00	0.00	2.74
531	2674	7.790782	TTCCTTTTTCCCTAGCATGTTATTT	57.209	32.000	0.00	0.00	0.00	1.40
610	2753	2.501723	AGGCTAACATGAGGTTCATCGT	59.498	45.455	0.00	0.00	40.96	3.73
618	2761	2.435805	TCAGGCTAAGGCTAACATGAGG	59.564	50.000	0.00	0.00	36.44	3.86
632	2775	3.701205	TTCTGCAATTCACTCAGGCTA	57.299	42.857	0.00	0.00	0.00	3.93
633	2776	2.574006	TTCTGCAATTCACTCAGGCT	57.426	45.000	0.00	0.00	0.00	4.58
634	2777	3.311966	GTTTTCTGCAATTCACTCAGGC	58.688	45.455	0.00	0.00	0.00	4.85
635	2778	3.318839	TGGTTTTCTGCAATTCACTCAGG	59.681	43.478	0.00	0.00	0.00	3.86
636	2779	4.293415	GTGGTTTTCTGCAATTCACTCAG	58.707	43.478	0.00	0.00	0.00	3.35
671	2814	4.096984	AGAAGAGTGTTTTCTGCAAACCTG	59.903	41.667	0.64	0.00	43.87	4.00
745	2890	0.774908	CCCCAACAGGAGGTTTGGTA	59.225	55.000	0.00	0.00	39.97	3.25
824	2969	2.092882	GTTACACGGCGTCAGCTCC	61.093	63.158	10.85	0.00	44.37	4.70
918	3086	1.178276	GCGAGGAGAGGAGAACAGAA	58.822	55.000	0.00	0.00	0.00	3.02
931	3118	1.178276	GGAGAAGAACAGAGCGAGGA	58.822	55.000	0.00	0.00	0.00	3.71
932	3119	0.174617	GGGAGAAGAACAGAGCGAGG	59.825	60.000	0.00	0.00	0.00	4.63
933	3120	0.174617	GGGGAGAAGAACAGAGCGAG	59.825	60.000	0.00	0.00	0.00	5.03
934	3121	1.258445	GGGGGAGAAGAACAGAGCGA	61.258	60.000	0.00	0.00	0.00	4.93
935	3122	1.219393	GGGGGAGAAGAACAGAGCG	59.781	63.158	0.00	0.00	0.00	5.03
936	3123	1.219393	CGGGGGAGAAGAACAGAGC	59.781	63.158	0.00	0.00	0.00	4.09
937	3124	0.533032	GTCGGGGGAGAAGAACAGAG	59.467	60.000	0.00	0.00	0.00	3.35
938	3125	1.248785	CGTCGGGGGAGAAGAACAGA	61.249	60.000	0.00	0.00	0.00	3.41
939	3126	1.215647	CGTCGGGGGAGAAGAACAG	59.784	63.158	0.00	0.00	0.00	3.16
940	3127	2.939261	GCGTCGGGGGAGAAGAACA	61.939	63.158	0.00	0.00	0.00	3.18
941	3128	2.125633	GCGTCGGGGGAGAAGAAC	60.126	66.667	0.00	0.00	0.00	3.01
942	3129	3.387947	GGCGTCGGGGGAGAAGAA	61.388	66.667	0.00	0.00	0.00	2.52
943	3130	4.689549	TGGCGTCGGGGGAGAAGA	62.690	66.667	0.00	0.00	0.00	2.87
944	3131	4.452733	GTGGCGTCGGGGGAGAAG	62.453	72.222	0.00	0.00	0.00	2.85
1079	3266	3.454812	CCCTAACCCTAGCTCTAGCAAAA	59.545	47.826	4.54	0.00	45.16	2.44
1113	3308	5.645067	TCAGATCGAGCTCATTCACAAAATT	59.355	36.000	15.40	0.00	0.00	1.82
1209	3408	3.382855	GCACAAAACATTCACATCTGCA	58.617	40.909	0.00	0.00	0.00	4.41
1319	3522	4.520492	AGCAATGAACACCTTCCTTTACAG	59.480	41.667	0.00	0.00	0.00	2.74
1391	3594	4.399004	AGGCATGTCAGAACTAGCTAAG	57.601	45.455	0.00	0.00	0.00	2.18
1464	3667	8.784043	ACTTAACCAAGCTTAACAACTTGATAG	58.216	33.333	0.00	0.01	44.89	2.08
1576	3799	7.440856	ACATCAAACAAATAAACAATGACCACC	59.559	33.333	0.00	0.00	0.00	4.61
1646	3870	6.291377	CACTGTTAAGTGCCATACTCCATAT	58.709	40.000	0.00	0.00	46.98	1.78
1715	3970	8.686334	CACAGTTTATGCCTTCCTGTAAAATAT	58.314	33.333	0.00	0.00	34.77	1.28
1915	4174	5.593095	AGAGCATTGACATCAGCATACAAAT	59.407	36.000	0.00	0.00	0.00	2.32
1940	4199	1.607178	CTGGTGCTGGGCATCCAAA	60.607	57.895	12.22	0.00	43.51	3.28
2057	4316	2.751166	TCTCCTCCTCTTTCTTTGCG	57.249	50.000	0.00	0.00	0.00	4.85
2147	4406	5.701224	TGATTCTTTAACTCCACACCCTTT	58.299	37.500	0.00	0.00	0.00	3.11
2165	4426	3.902881	TCCTTCTGCTCCTTCTGATTC	57.097	47.619	0.00	0.00	0.00	2.52
2594	4859	2.592102	ACAACACTGCTGGATCCAAT	57.408	45.000	17.00	0.00	0.00	3.16
2722	4987	9.850628	AACATCAAATTTGACTCACATTCATAG	57.149	29.630	22.71	2.17	40.49	2.23
2755	5020	9.691362	AAAACCAAATTGTACTAAGCACATAAG	57.309	29.630	0.00	0.00	0.00	1.73
2951	5216	2.618709	CCTAGGCCCATTTTGTCGATTC	59.381	50.000	0.00	0.00	0.00	2.52
2952	5217	2.654863	CCTAGGCCCATTTTGTCGATT	58.345	47.619	0.00	0.00	0.00	3.34
2999	5264	2.031683	CGTAGGGCCATTTTGTCGATTC	59.968	50.000	6.18	0.00	0.00	2.52
3000	5265	2.014128	CGTAGGGCCATTTTGTCGATT	58.986	47.619	6.18	0.00	0.00	3.34
3025	5339	4.760530	ATCGATGAAATGAGGGTCAAGA	57.239	40.909	0.00	0.00	0.00	3.02
3099	5461	0.334676	CCCCTAGGGCCATTTTGTCA	59.665	55.000	23.84	0.00	35.35	3.58

Based at the University of Bristol with support from BBSRC.

AutoCloner maintained by Alex Coulton.